[HTML][HTML] New avenues in artificial-intelligence-assisted drug discovery

C Cerchia, A Lavecchia - Drug Discovery Today, 2023 - Elsevier
Over the past decade, the amount of biomedical data available has grown at unprecedented
rates. Increased automation technology and larger data volumes have encouraged the use …

[HTML][HTML] Protein–ligand docking in the machine-learning era

C Yang, EA Chen, Y Zhang - Molecules, 2022 - mdpi.com
Molecular docking plays a significant role in early-stage drug discovery, from structure-
based virtual screening (VS) to hit-to-lead optimization, and its capability and predictive …

[HTML][HTML] Scoring functions for protein-ligand binding affinity prediction using structure-based deep learning: A review

R Meli, GM Morris, PC Biggin - Frontiers in bioinformatics, 2022 - frontiersin.org
The rapid and accurate in silico prediction of protein-ligand binding free energies or binding
affinities has the potential to transform drug discovery. In recent years, several deep learning …

Delta machine learning to improve scoring-ranking-screening performances of protein–ligand scoring functions

C Yang, Y Zhang - Journal of chemical information and modeling, 2022 - ACS Publications
Protein–ligand scoring functions are widely used in structure-based drug design for fast
evaluation of protein–ligand interactions, and it is of strong interest to develop scoring …

Integrated molecular modeling and machine learning for drug design

S Xia, E Chen, Y Zhang - Journal of Chemical Theory and …, 2023 - ACS Publications
Modern therapeutic development often involves several stages that are interconnected, and
multiple iterations are usually required to bring a new drug to the market. Computational …

[HTML][HTML] Molecular docking in organic, inorganic, and hybrid systems: A tutorial review

M Mohanty, PS Mohanty - Monatshefte für Chemie-Chemical Monthly, 2023 - Springer
Molecular docking simulation is a very popular and well-established computational
approach and has been extensively used to understand molecular interactions between a …

[HTML][HTML] DiffBindFR: an SE (3) equivariant network for flexible protein–ligand docking

J Zhu, Z Gu, J Pei, L Lai - Chemical Science, 2024 - pubs.rsc.org
Molecular docking, a key technique in structure-based drug design, plays pivotal roles in
protein–ligand interaction modeling, hit identification and optimization, in which accurate …

Profiling prediction of nuclear receptor modulators with multi-task deep learning methods: toward the virtual screening

J Wang, C Lou, G Liu, W Li, Z Wu… - Briefings in …, 2022 - academic.oup.com
Nuclear receptors (NRs) are ligand-activated transcription factors, which constitute one of
the most important targets for drug discovery. Current computational strategies mainly focus …

XLPFE: A simple and effective machine learning scoring function for protein–ligand scoring and ranking

L Dong, X Qu, B Wang - ACS omega, 2022 - ACS Publications
Prediction of protein–ligand binding affinities is a central issue in structure-based computer-
aided drug design. In recent years, much effort has been devoted to the prediction of the …

Artificial intelligence and cheminformatics tools: a contribution to the drug development and chemical science

I Saifi, BA Bhat, SS Hamdani, UY Bhat… - Journal of …, 2023 - Taylor & Francis
In the ever-evolving field of drug discovery, the integration of Artificial Intelligence (AI) and
Machine Learning (ML) with cheminformatics has proven to be a powerful combination …